Supplementary Materials

Supplementary Material for:

Robust classification of bacterial and viral infections via integrated host gene expression diagnostics

Timothy E. Sweeney,* Hector R. Wong, Purvesh Khatri*

*Corresponding author. Email: tes17{at}stanford.edu (T.E.S.); pkhatri{at}stanford.edu (P.K.)

Published 06 July 2016, Sci. Transl. Med. 8, 346ra91 (2016)
DOI: 10.1126/scitranslmed.aaf7165

This PDF file includes:

  • Fig. S1. The SMS and pathogen type.
  • Fig. S2. Study schematic.
  • Fig. S3. Forest plots of the seven-gene set.
  • Fig. S4. Summary ROC forest plots for discovery data.
  • Fig. S5. Summary ROC forest plots for direct validation data.
  • Fig. S6. Bacterial/viral metascore ROC in GSE53166.
  • Fig. S7. Schematic of COCONUT conormalization.
  • Fig. S8. COCONUT conormalization of whole-blood discovery data sets.
  • Fig. S9. Bacterial/viral score in global ROC of non-conormalized whole-blood discovery data sets.
  • Fig. S10. Bacterial/viral score in global ROC of COCONUT-conormalized whole-blood discovery data sets.
  • Fig. S11. Bacterial/viral score in global ROC of non-conormalized whole-blood validation data sets.
  • Fig. S12. Bacterial/viral score in global ROC of non-conormalized PBMC validation data sets.
  • Fig. S13. Bacterial/viral score in global ROC of COCONUT-conormalized PBMC validation data sets.
  • Fig. S14. The effects of age on SMS in COCONUT-conormalized data.
  • Fig. S15. SMS across all COCONUT-conormalized whole-blood data (both discovery and validation).
  • Fig. S16. IADM across COCONUT-conormalized public gene expression data including healthy controls.
  • Fig. S17. NPV and PPV for the IADM.
  • Fig. S18. GSE63990, adults with ARIs.
  • Table S1. Significant gene list.
  • Table S2. Test characteristics of the bacterial/viral metascore in direct validation data sets.
  • Table S3. Data sets with noninfected inflammatory conditions used to test the IADM.
  • Legend for table S4
  • Acknowledgments

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Other Supplementary Material for this manuscript includes the following:

  • Table S4 (.csv format). NanoString data.